Gene Loss

Publication Details

Identifier: JB_YK7GPI

Curator: Gonçalo Themudo

DOI: 10.1007/s12041-021-01333-y

PMID: 34787113

Title:

Genomewide analysis of sperm whale E2 ubiquitin conjugating enzyme genes.

Abstract:

Marine mammals are exposed to the oxidative stress induced by hypoxia/reoxygenation cycles yet resist cellular damage. The availability of high-quality genomes promises to provide insights on how this is achieved. In this study, we considered the ubiquitinconjugating enzymes (E2) gene family, genes, which encodes enzymes with critical roles in cellular physiology, including the oxidative stress response. The sperm whale was the first marine mammal with a chromosome-level genome, allowing the study of gene family repertories, phylogenetic relationships, chromosome gene organization, and other evolutionary patterns on a genomewide basis. Here, 39 genes (similar to human, including 32 intact genes, one partial gene, six pseudogenes) were identified in sperm whale genome. These genes were found on 17 chromosomes and were assigned into 23 subfamilies, 16 subgroups, and four classes based on structural characteristics and functions, phylogeny and conserved domains, respectively. Although the gene structure and motif distribution of sperm whale genes are conserved in each subfamily, motif variation and intron gain/loss may contribute to functional divergence. Segmental duplications were detected in six gene pairs, which could drive gene innovation in the sperm whale. Contrasting seven cetaceans and five terrestrial taxa, we found that cetaceans have experienced shifts in selective constraint on genes, which may contribute to oxidative stress tolerance during the adaptation to aquatic life. Our results provide the first comprehensive survey of cetacean genes.

Last update:

24-03-2025

Associated Glosses (4 results)

GlossID	Species	Symbol	Gene Loss Mechanism	Loss Type	Lineage Specific	Citation
GL_8ZCWSP	Physeter catodon	UBE2S	Other	Full	No	10.1007/s12041-021-01333-y
GL_9BYM10	Physeter catodon	UBE2D1	Other	Full	No	10.1007/s12041-021-01333-y
GL_H5MMSK	Physeter catodon	UBE2N	Other	Full	No	10.1007/s12041-021-01333-y
GL_J3Y4MG	Physeter catodon	UBE2G1	Other	Full	No	10.1007/s12041-021-01333-y